RetrogeneDB ID: retro_fcat_730

Retrocopy location

• Organism: Cat (Felis catus)
• Coordinates: B2:117137302..117137764(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: ORMDL3
• Ensembl ID: ENSFCAG00000031660
• Aliases: None
• Description: ORM1-like 3 (S. cerevisiae) [Source:HGNC Symbol;Acc:16038]

Sequence

>retro_fcat_730
ATGAATGTTGGAGTTGCCCACAGTGAGGTGGATGCAAGTCCCTGTATAATGAACAGCCAGGGCACGTGGCCGCCATACGC
ATCGGGAGCTGGCTTGCTTCACATTGTCGTCCTCAGTATTCCCTTCTTCATTGTTTCTGTTGTTTGCACCTTAACAAATA
TTATACATACTCTCAGGATGTATGGGTTTTTTGGATGCAGTAAAAAGAGTGCCTTTTGAAACTCCCGACAAAGGTAAAAG
CAAGGTGTCCCCTGATTCGTTGGAAACACCTGGACTGTGGAGTGCAATTTAAACCTTCACAGAAGTTTCGCACAGTTTTT
CCAATAATTCTATATTATCTGGCAAGTCTCTGTCAATGTATGATCCAACTCACTTCATCCTAAACACAGCGTCTCTCCTG
AGGTGCTGATTCCAAGAATGCCAAAGTTACACGGTGTTTGGATCTTTGGAATTAATGAGTAT

Alignment

ORF - retro_fcat_730 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.23 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MNVGTAHSEVNPNTRVMNSRGIWLSYVLAIGLLHVVLLSIPFVSVPVVWTLTNLIHNMGMYIF-LHTVKG
          MNVG.AHSEV......MNS.G.W..Y....GLLH.V.LSIPF..V.VV.TLTN.IH...MY.F.L..VK.
Retrocopy MNVGVAHSEVDASPCIMNSQGTWPPYASGAGLLHIVVLSIPFFIVSVVCTLTNIIHTLRMYGF>LDAVKR

Parental  TPFETPDQGK-ARL-LTHWEQMDYGVQFTASRKFLTITPIVLYFLTSF-YTKYDQIHFILNTVSLM-SVL
          .PFETPD.GK.AR..L..W...D.GVQF..S.KF.T..PI.LY.L.S.....YD..HFILNT.SL...VL
Retrocopy VPFETPDKGK>ARCPLIRWKHLDCGVQFKPSQKFRTVFPIILYYLASL<LSMYDPTHFILNTASLL<EVL

Parental  IPKLPQLHGVRIFGINKY
          IP..P.LHGV.IFGIN.Y
Retrocopy IPRMPKLHGVWIFGINEY

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP017611_brain	0.00 RPM	40.86 RPM
SRP017611_kidney	0.00 RPM	58.95 RPM
SRP017611_liver	0.00 RPM	78.55 RPM

ChIP-Seq

Felis catus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_fcat_730 retrocopy.

TSS

Felis catus was not studied using FANTOM5 data.

Lab

retro_fcat_730 was not experimentally validated.

Homology

Retrocopy orthology:

Felis catus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000013964	1 retrocopy	retro_fcat_895,
Felis catus	ENSFCAG00000031660	1 retrocopy	retro_fcat_730 ,
Macropus eugenii	ENSMEUG00000000957	3 retrocopies	retro_meug_1234, retro_meug_130, retro_meug_2052,
Mus musculus	ENSMUSG00000038150	1 retrocopy	retro_mmus_2464,
Sarcophilus harrisii	ENSSHAG00000014339	1 retrocopy	retro_shar_372,